S100a4 (S100 calcium-binding protein A4) - Rat Genome Database

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Gene: S100a4 (S100 calcium-binding protein A4) Rattus norvegicus
Analyze
Symbol: S100a4
Name: S100 calcium-binding protein A4
RGD ID: 3245
Description: Enables actin binding activity; calcium ion binding activity; and calcium-dependent protein binding activity. Predicted to be involved in positive regulation of canonical NF-kappaB signal transduction. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in extracellular space; nucleus; and perinuclear region of cytoplasm. Orthologous to human S100A4 (S100 calcium binding protein A4); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
Previously known as: 18A2; 42A; calvasculin; CAPL; metastasin; MTS1; nerve growth factor-induced protein 42A; P9K; P9ka; PEL98; placental calcium-binding protein; protein 9 Ka homologous to calcium-binding protein; protein S100-A4; RNP9KA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82178,388,529 - 178,390,838 (+)NCBIGRCr8
mRatBN7.22176,090,951 - 176,093,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2183,231,137 - 183,233,459 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02181,253,405 - 181,255,727 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02175,853,265 - 175,855,593 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02189,997,278 - 189,999,587 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02209,431,373 - 209,433,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42182,885,070 - 182,887,380 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12182,835,175 - 182,837,486 (+)NCBI
Celera2170,025,678 - 170,027,982 (+)NCBICelera
RH 3.4 Map21164.6RGD
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1,4-dithiothreitol  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-nitrotoluene  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (EXP,ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
andrographolide  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
apocynin  (ISO)
aristolochic acid A  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
atrazine  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (ISO)
bilirubin IXalpha  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
calcitriol  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
chloroprene  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
cycloheximide  (ISO)
cyclosporin A  (EXP,ISO)
cytarabine  (ISO)
D-penicillamine  (EXP)
DDE  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
Diosbulbin B  (ISO)
dioxygen  (ISO)
diuron  (EXP,ISO)
dopamine  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethylenediaminetetraacetic acid  (ISO)
ethylparaben  (ISO)
fenoldopam  (EXP)
fenpyroximate  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
furan  (EXP)
geldanamycin  (ISO)
gentamycin  (EXP)
glycidol  (EXP)
glycidyl methacrylate  (ISO)
graphene oxide  (ISO)
homocysteine  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
iohexol  (ISO)
iopamidol  (ISO)
isoprenaline  (EXP)
isotretinoin  (ISO)
ivermectin  (ISO)
ketamine  (EXP,ISO)
L-1,4-dithiothreitol  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
losartan  (ISO)
Malonoben  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methyl carbamate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
methylseleninic acid  (ISO)
Miglitol  (EXP,ISO)
milrinone  (EXP)
mitomycin C  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
niclosamide  (ISO)
Nutlin-3  (ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
Pachymic acid  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
parathion  (ISO)
pentetic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenytoin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
pravastatin  (EXP,ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
scopolamine  (EXP)
senecionine  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sirolimus  (EXP)
sodium arsenite  (ISO)
sodium tungstate  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
Triptolide  (EXP)
tunicamycin  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)
xanthohumol  (ISO)
zaragozic acid A  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA,ISO)
extracellular space  (IBA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)
perinuclear region of cytoplasm  (IBA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Calcium-ion binding by the potential calcium-ion-binding protein, p9Ka. Barraclough R, etal., Biochem Biophys Res Commun. 1990 Jun 15;169(2):660-6.
2. Molecular cloning and sequence of the gene for p9Ka. A cultured myoepithelial cell protein with strong homology to S-100, a calcium-binding protein. Barraclough R, etal., J Mol Biol 1987 Nov 5;198(1):13-20.
3. Transformation of normal rat kidney cells by v-K-ras enhances expression of transin 2 and an S-100-related calcium-binding protein. De Vouge MW and Mukherjee BB, Oncogene 1992 Jan;7(1):109-19.
4. Protein interactions between S100A4 (p9Ka) and other cellular proteins identified using in vitro methods. Flynn AM, etal., Biochem Soc Trans. 1996 Aug;24(3):341S.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
7. Gene expression profile of rat adipose tissue at the onset of high-fat-diet obesity. Li J, etal., Am J Physiol Endocrinol Metab 2002 Jun;282(6):E1334-41.
8. Nerve growth factor induces the genes for two proteins related to a family of calcium-binding proteins in PC12 cells. Masiakowski P and Shooter EM, Proc Natl Acad Sci U S A 1988 Feb;85(4):1277-81.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. An integrated rat genetic map: analysis of linkage conservation with the mouse and human maps. Remmers EF, etal., Transplant Proc 1999 May;31(3):1549-54.
12. GOA pipeline RGD automated data pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Metastasis-associated S100A4 (Mts1) protein is expressed in subpopulations of sensory and autonomic neurons and in Schwann cells of the adult rat. Sandelin M, etal., J Comp Neurol 2004 May 24;473(2):233-43.
15. Calcium, troponin, calmodulin, S100 proteins: from myocardial basics to new therapeutic strategies. Schaub MC and Heizmann CW, Biochem Biophys Res Commun. 2008 Apr 25;369(1):247-64. Epub 2007 Oct 25.
16. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
17. The C-terminal region of S100A4 is important for its metastasis-inducing properties. Zhang S, etal., Oncogene 2005 Jun 23;24(27):4401-11.

Genomics

Comparative Map Data
S100a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82178,388,529 - 178,390,838 (+)NCBIGRCr8
mRatBN7.22176,090,951 - 176,093,258 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2183,231,137 - 183,233,459 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02181,253,405 - 181,255,727 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02175,853,265 - 175,855,593 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02189,997,278 - 189,999,587 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02209,431,373 - 209,433,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42182,885,070 - 182,887,380 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12182,835,175 - 182,837,486 (+)NCBI
Celera2170,025,678 - 170,027,982 (+)NCBICelera
RH 3.4 Map21164.6RGD
Cytogenetic Map2q34NCBI
S100A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381153,543,621 - 153,545,806 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1153,543,613 - 153,550,136 (-)EnsemblGRCh38hg38GRCh38
GRCh371153,516,097 - 153,518,282 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361151,782,719 - 151,784,906 (-)NCBINCBI36Build 36hg18NCBI36
Build 341150,329,170 - 150,331,355NCBI
Celera1126,587,355 - 126,589,542 (-)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1124,879,355 - 124,881,542 (-)NCBIHuRef
CHM1_11154,912,044 - 154,914,231 (-)NCBICHM1_1
T2T-CHM13v2.01152,680,877 - 152,683,062 (-)NCBIT2T-CHM13v2.0
S100a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39390,511,077 - 90,513,349 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl390,511,078 - 90,513,352 (+)EnsemblGRCm39 Ensembl
GRCm38390,603,770 - 90,606,045 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl390,603,771 - 90,606,045 (+)EnsemblGRCm38mm10GRCm38
MGSCv37390,407,692 - 90,409,967 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36390,689,697 - 90,691,968 (+)NCBIMGSCv36mm8
Celera390,645,174 - 90,647,449 (+)NCBICelera
Cytogenetic Map3F1NCBI
cM Map339.27NCBI
S100a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955545192,116 - 195,394 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955545192,236 - 194,468 (-)NCBIChiLan1.0ChiLan1.0
S100A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2196,288,008 - 96,290,345 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1196,023,251 - 96,025,528 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01128,898,765 - 128,901,042 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11132,527,846 - 132,530,125 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1132,527,846 - 132,530,122 (-)Ensemblpanpan1.1panPan2
S100A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1743,494,007 - 43,496,021 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha742,986,972 - 42,988,993 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0743,443,738 - 43,445,759 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl743,440,733 - 43,445,796 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1743,146,014 - 43,148,039 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0743,199,907 - 43,201,928 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0743,483,524 - 43,485,545 (+)NCBIUU_Cfam_GSD_1.0
S100a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505824,325,369 - 24,327,658 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365803,355,699 - 3,358,242 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365803,355,751 - 3,358,030 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
S100A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl496,088,201 - 96,091,156 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1496,088,102 - 96,091,160 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24104,908,141 - 104,911,151 (-)NCBISscrofa10.2Sscrofa10.2susScr3
S100A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12010,258,142 - 10,260,390 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2010,258,070 - 10,260,871 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660389,649,628 - 9,651,911 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
S100a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248853,586,909 - 3,592,914 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248853,589,323 - 3,591,463 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in S100a4
29 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:38
Interacting mature miRNAs:38
Transcripts:ENSRNOT00000015958
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168354880185122374Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2172710921184114403Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2174930955213594495Rat

Markers in Region
D2Mit13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2156,794,419 - 56,794,475 (+)MAPPERmRatBN7.2
mRatBN7.22176,092,339 - 176,092,546 (+)MAPPERmRatBN7.2
Rnor_6.02189,998,667 - 189,998,875NCBIRnor6.0
Rnor_5.02209,432,762 - 209,432,968UniSTSRnor5.0
RGSC_v3.42182,886,458 - 182,886,669RGDRGSC3.4
RGSC_v3.42182,886,459 - 182,886,669UniSTSRGSC3.4
RGSC_v3.12182,836,564 - 182,836,775RGD
Celera2170,027,065 - 170,027,271UniSTS
SHRSP x BN Map270.0198UniSTS
SHRSP x BN Map270.0198RGD
Cytogenetic Map2q34UniSTS
D2Wox23  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,091,092 - 176,091,187 (+)MAPPERmRatBN7.2
Rnor_6.02189,997,420 - 189,997,514NCBIRnor6.0
Rnor_5.02209,431,515 - 209,431,609UniSTSRnor5.0
RGSC_v3.42182,885,212 - 182,885,306UniSTSRGSC3.4
RGSC_v3.12182,835,317 - 182,835,412RGD
Celera2170,025,820 - 170,025,912UniSTS
Cytogenetic Map2q34UniSTS
D2Arb37  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,092,313 - 176,092,591 (+)MAPPERmRatBN7.2
Rnor_6.02189,998,641 - 189,998,920NCBIRnor6.0
Rnor_5.02209,432,736 - 209,433,013UniSTSRnor5.0
RGSC_v3.42182,886,432 - 182,886,714RGDRGSC3.4
RGSC_v3.42182,886,433 - 182,886,714UniSTSRGSC3.4
RGSC_v3.12182,836,538 - 182,836,820RGD
Celera2170,027,039 - 170,027,316UniSTS
SHRSP x BN Map270.0198UniSTS
SHRSP x BN Map270.0198RGD
Cytogenetic Map2q34UniSTS
RH132651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,089,314 - 176,089,508 (+)MAPPERmRatBN7.2
Rnor_6.02189,995,642 - 189,995,835NCBIRnor6.0
Rnor_5.02209,429,737 - 209,429,930UniSTSRnor5.0
RGSC_v3.42182,883,434 - 182,883,627UniSTSRGSC3.4
Celera2170,024,042 - 170,024,235UniSTS
RH 3.4 Map21165.4UniSTS
Cytogenetic Map2q34UniSTS
RH94503  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22176,093,136 - 176,093,239 (+)MAPPERmRatBN7.2
Rnor_6.02189,999,466 - 189,999,568NCBIRnor6.0
Rnor_5.02209,433,559 - 209,433,661UniSTSRnor5.0
RGSC_v3.42182,887,260 - 182,887,362UniSTSRGSC3.4
Celera2170,027,862 - 170,027,964UniSTS
RH 3.4 Map21164.6UniSTS
Cytogenetic Map2q34UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 109 91 90 59 25 59 6 218 97 89 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000015958   ⟹   ENSRNOP00000015958
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2176,091,804 - 176,093,254 (+)Ensembl
Rnor_6.0 Ensembl2189,997,129 - 189,999,604 (+)Ensembl
RefSeq Acc Id: NM_012618   ⟹   NP_036750
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82178,388,529 - 178,390,837 (+)NCBI
mRatBN7.22176,090,951 - 176,093,257 (+)NCBI
Rnor_6.02189,997,278 - 189,999,586 (+)NCBI
Rnor_5.02209,431,373 - 209,433,680 (+)NCBI
RGSC_v3.42182,885,070 - 182,887,380 (+)RGD
Celera2170,025,678 - 170,027,982 (+)RGD
Sequence:
RefSeq Acc Id: XM_006232592   ⟹   XP_006232654
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82178,389,362 - 178,390,838 (+)NCBI
mRatBN7.22176,091,780 - 176,093,258 (+)NCBI
Rnor_6.02189,998,123 - 189,999,587 (+)NCBI
Rnor_5.02209,431,373 - 209,433,680 (+)NCBI
Sequence:
Protein Sequences
Ensembl Protein ENSRNOP00000015958.1
  ENSRNOP00055031425
  ENSRNOP00060046452
  ENSRNOP00065038767
RefSeq Acc Id: NP_036750   ⟸   NM_012618
- Sequence:
RefSeq Acc Id: XP_006232654   ⟸   XM_006232592
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000015958   ⟸   ENSRNOT00000015958
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P05942-F1-model_v2 AlphaFold P05942 1-101 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691508
Promoter ID:EPDNEW_R2033
Type:single initiation site
Name:S100a4_1
Description:S100 calcium-binding protein A4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02189,997,278 - 189,997,338EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3245 AgrOrtholog
BioCyc Gene G2FUF-52328 BioCyc
Ensembl Genes ENSRNOG00000011821 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00055022546 UniProtKB/Swiss-Prot
  ENSRNOG00060032473 UniProtKB/Swiss-Prot
  ENSRNOG00065027428 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015958.5 UniProtKB/Swiss-Prot
  ENSRNOT00055038702 UniProtKB/Swiss-Prot
  ENSRNOT00060056246 UniProtKB/Swiss-Prot
  ENSRNOT00065047279 UniProtKB/Swiss-Prot
Gene3D-CATH EF-hand UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S-100_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S100/CaBP-9k_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S100_Ca-bd_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24615 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene S100a4 ENTREZGENE
PANTHER PROTEIN S100-A4 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
  S100 CALCIUM-BINDING PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam S_100 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen S100a4 PhenoGen
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S100_CABP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011821 RatGTEx
  ENSRNOG00055022546 RatGTEx
  ENSRNOG00060032473 RatGTEx
  ENSRNOG00065027428 RatGTEx
SMART EFh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S_100 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP EF-hand UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
TIGR TC228997
UniProt A6J6P7_RAT UniProtKB/TrEMBL
  S10A4_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 S100a4  S100 calcium-binding protein A4      Symbol and Name status set to approved 70586 APPROVED
2001-04-19 P9ka  Protein 9 Ka homologous to calcium-binding protein      Symbol and name withdrawn 61478 WITHDRAWN
2001-04-19 S100a4  S100 calcium-binding protein A4      Symbol and name updated to reflect Human and Mouse nomenclature 61478 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease has metastasis-inducing capabilities  
gene_process involved in the regulation of cell cycle progression, modulating intercellular adhesion, and invasive and metastatic properties of cancer cells  
gene_regulation expression increases at the onset of high-fat-diet obesity 625747
gene_regulation expression is induced by nerve growth factor (NGF) 729699